GgaINT0022729 @ galGal3
Intron Retention
Gene
ENSGALG00000002486 | RNF123
Description
NA
Coordinates
chr12:2219521-2220009:+
Coord C1 exon
chr12:2219521-2219606
Coord A exon
chr12:2219607-2219692
Coord C2 exon
chr12:2219693-2220009
Length
86 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
GCTTCTTCCCCCCATCCCAGAGC
3' ss Score
8.15
Exon sequences
Seq C1 exon
CCCACCAGCGAGGAGGACCTGTGCCCCATCTGCTACGCACACCCCATCTCTGCCATCTTCCGGCCCTGCTCCCACAAGTCCTGCAA
Seq A exon
GTGAGTATGAGTAGCTCCCACTGGCCCCAGTACCCCACAGCATTTGGGATTCAGGAGTGCTTACGCGCTTCTTCCCCCCATCCCAG
Seq C2 exon
AGCCTGCATCAACCAGCACCTGATGAACAACAAGGACTGCTTCTTCTGCAAGGCCACCATCACAGGAGTGGATGACTTCACCAAGCCGGCCAGCTCCTAGCGCCCAGCCCTGCACGTGGGTCCATCCCTAACACAGGATGGGGGCTGCAGGGAGGGAGGGGCCGTTCTCAGGGAGGGGAGCGCGAGGCCTCGTCCCCACAGCAGCCCTGTGTGCGGTGAGCGCTGCGTGGGGCCGGCTGTGTGTTTGGGCTCTGTGACTTCGCCCCTGGCTGGGGGCTGACTTCATGAAATGCAGCATTAAATTATTCTTCCTTACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002486:ENSGALT00000003917:38
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF042167=FdhE=FE(14.3=100),PF139201=zf-C3HC4_3=PU(51.0=86.2)
A:
NA
C2:
PF042167=FdhE=PD(11.2=64.7),PF139201=zf-C3HC4_3=PD(46.9=67.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACCCCATCTCTGCCATCTT
R:
GATGGACCCACGTGCAGG
Band lengths:
174-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]